A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report generated on 2018-07-01, 00:00 based on data in:
/mnt/NAS/NASBIO1/DATA/GAMeR_DB/CLOSTRIDIUM
General Statistics
Showing 596 samples.
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QUAST
QUAST is a quality assessment tool for genome assemblies, written by the Center for Algorithmic Biotechnology.
Assembly Statistics
Showing 149/149 rows and 12/12 columns.
| Sample Name | N50 (Kbp) | N75 (Kbp) | L50 (K) | L75 (K) | Largest contig (Kbp) | Length (Mbp) | Misassemblies | Mismatches/100kbp | Indels/100kbp | Genes | Genes (Partial) | Genome Fraction |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 15SBCL1664_scaffold_closed | 2772.0Kbp | 2772.0Kbp | 0.0K | 1.0K | 2772.0Kbp | 2.9Mbp | 111.0 | 552.44 | 30.34 | 2353 | 53 | 89.5% |
| 15SBCL801_scaffold_closed | 3222.6Kbp | 3222.6Kbp | 0.0K | 1.0K | 3222.6Kbp | 3.2Mbp | 12.0 | 1.34 | 1.12 | 2951 | 11 | 98.9% |
| 15SBCL899_scaffold_closed | 3191.4Kbp | 3191.4Kbp | 0.0K | 1.0K | 3191.4Kbp | 3.2Mbp | 97.0 | 1445.74 | 72.41 | 2473 | 38 | 83.3% |
| 15SBCL900_scaffold_closed | 3293.1Kbp | 3293.1Kbp | 0.0K | 1.0K | 3293.1Kbp | 3.3Mbp | 93.0 | 1400.38 | 71.31 | 2555 | 49 | 85.6% |
| 16SBCL106_scaffold_closed | 1913.8Kbp | 326.4Kbp | 0.0K | 2.0K | 1913.8Kbp | 2.9Mbp | 132.0 | 297.95 | 19.43 | 2398 | 116 | 92.9% |
| 16SBCL1078_scaffold_closed | 3292.1Kbp | 3292.1Kbp | 0.0K | 1.0K | 3292.1Kbp | 3.3Mbp | 90.0 | 2267.06 | 105.71 | 2494 | 46 | 84.8% |
| 16SBCL1079_scaffold_closed | 3242.2Kbp | 3242.2Kbp | 0.0K | 1.0K | 3242.2Kbp | 3.3Mbp | 52.0 | 1034.47 | 46.29 | 2705 | 30 | 86.8% |
| 16SBCL107_scaffold_closed | 2185.3Kbp | 475.4Kbp | 0.0K | 2.0K | 2185.3Kbp | 2.9Mbp | 98.0 | 487.79 | 29.31 | 2407 | 68 | 91.4% |
| 16SBCL1080_scaffold_closed | 3296.8Kbp | 3296.8Kbp | 0.0K | 1.0K | 3296.8Kbp | 3.3Mbp | 56.0 | 1048.24 | 46.59 | 2721 | 29 | 87.0% |
| 16SBCL1081_scaffold_closed | 3292.0Kbp | 3292.0Kbp | 0.0K | 1.0K | 3292.0Kbp | 3.3Mbp | 93.0 | 2329.33 | 107.95 | 2494 | 46 | 84.8% |
| 16SBCL1082_scaffold_closed | 3293.7Kbp | 3293.7Kbp | 0.0K | 1.0K | 3293.7Kbp | 3.3Mbp | 56.0 | 1044.42 | 46.98 | 2717 | 29 | 87.0% |
| 16SBCL1083_scaffold_closed | 3208.4Kbp | 3208.4Kbp | 0.0K | 1.0K | 3208.4Kbp | 3.2Mbp | 85.0 | 1145.67 | 52.23 | 2583 | 58 | 87.4% |
| 16SBCL109_scaffold_closed | 2834.1Kbp | 2834.1Kbp | 0.0K | 1.0K | 2834.1Kbp | 3.0Mbp | 123.0 | 438.66 | 24.03 | 2391 | 78 | 91.3% |
| 16SBCL110_scaffold_closed | 2610.2Kbp | 2610.2Kbp | 0.0K | 1.0K | 2610.2Kbp | 2.8Mbp | 126.0 | 999.83 | 52.14 | 2305 | 58 | 88.0% |
| 16SBCL111_scaffold_closed | 3114.3Kbp | 3114.3Kbp | 0.0K | 1.0K | 3114.3Kbp | 3.2Mbp | 144.0 | 1376.64 | 66.96 | 2445 | 131 | 85.3% |
| 16SBCL1126_scaffold_closed | 1122.5Kbp | 1122.5Kbp | 0.0K | 2.0K | 1271.4Kbp | 3.0Mbp | 105.0 | 452.42 | 25.68 | 2391 | 65 | 91.1% |
| 16SBCL1127_scaffold_closed | 3003.9Kbp | 3003.9Kbp | 0.0K | 1.0K | 3003.9Kbp | 3.0Mbp | 102.0 | 454.25 | 25.34 | 2398 | 75 | 91.2% |
| 16SBCL1128_scaffold_closed | 2428.3Kbp | 2428.3Kbp | 0.0K | 1.0K | 2428.3Kbp | 3.0Mbp | 109.0 | 444.86 | 25.31 | 2391 | 75 | 91.4% |
| 16SBCL1129_scaffold_closed | 2092.4Kbp | 325.0Kbp | 0.0K | 2.0K | 2092.4Kbp | 3.0Mbp | 118.0 | 455.34 | 25.91 | 2401 | 76 | 91.4% |
| 16SBCL1130_scaffold_closed | 2359.5Kbp | 2359.5Kbp | 0.0K | 1.0K | 2359.5Kbp | 3.0Mbp | 133.0 | 454.92 | 25.93 | 2397 | 79 | 91.4% |
| 16SBCL113_scaffold_closed | 2872.5Kbp | 2872.5Kbp | 0.0K | 1.0K | 2872.5Kbp | 2.9Mbp | 91.0 | 385.14 | 22.55 | 2422 | 64 | 92.3% |
| 16SBCL1141_scaffold_closed | 3154.4Kbp | 3154.4Kbp | 0.0K | 1.0K | 3154.4Kbp | 3.2Mbp | 73.0 | 1156.18 | 54.75 | 2606 | 45 | 87.9% |
| 16SBCL1142_scaffold_closed | 3329.8Kbp | 3329.8Kbp | 0.0K | 1.0K | 3329.8Kbp | 3.3Mbp | 54.0 | 827.66 | 42.84 | 2685 | 39 | 91.0% |
| 16SBCL1143_scaffold_closed | 3281.5Kbp | 3281.5Kbp | 0.0K | 1.0K | 3281.5Kbp | 3.4Mbp | 60.0 | 771.27 | 35.87 | 2639 | 39 | 89.8% |
| 16SBCL1144_scaffold_closed | 3102.2Kbp | 3102.2Kbp | 0.0K | 1.0K | 3102.2Kbp | 3.2Mbp | 112.0 | 1366.52 | 65.03 | 2491 | 63 | 84.6% |
| 16SBCL1344_scaffold_closed | 3236.0Kbp | 3236.0Kbp | 0.0K | 1.0K | 3236.0Kbp | 3.5Mbp | 59.0 | 837.88 | 39.42 | 2709 | 35 | 91.7% |
| 16SBCL1431_scaffold_closed | 2910.4Kbp | 2910.4Kbp | 0.0K | 1.0K | 2910.4Kbp | 2.9Mbp | 122.0 | 1011.21 | 53.61 | 2286 | 53 | 87.7% |
| 16SBCL1432_scaffold_closed | 2480.1Kbp | 2480.1Kbp | 0.0K | 1.0K | 2480.1Kbp | 2.9Mbp | 123.0 | 993.79 | 51.98 | 2291 | 63 | 87.8% |
| 16SBCL1433_scaffold_closed | 2661.5Kbp | 2661.5Kbp | 0.0K | 1.0K | 2661.5Kbp | 2.9Mbp | 127.0 | 996.31 | 52.59 | 2288 | 64 | 87.7% |
| 16SBCL1434_scaffold_closed | 2903.7Kbp | 2903.7Kbp | 0.0K | 1.0K | 2903.7Kbp | 2.9Mbp | 130.0 | 995.05 | 52.56 | 2299 | 60 | 87.8% |
| 16SBCL1435_scaffold_closed | 2464.9Kbp | 2464.9Kbp | 0.0K | 1.0K | 2464.9Kbp | 2.9Mbp | 137.0 | 983.17 | 51.39 | 2292 | 64 | 87.8% |
| 16SBCL1552_scaffold_closed | 2918.4Kbp | 2918.4Kbp | 0.0K | 1.0K | 2918.4Kbp | 3.0Mbp | 91.0 | 3076.22 | 136.50 | 2152 | 52 | 71.9% |
| 16SBCL1584_scaffold_closed | 2917.4Kbp | 2917.4Kbp | 0.0K | 1.0K | 2917.4Kbp | 2.9Mbp | 113.0 | 448.29 | 25.31 | 2366 | 70 | 90.8% |
| 16SBCL1585_scaffold_closed | 2461.6Kbp | 2461.6Kbp | 0.0K | 1.0K | 2461.6Kbp | 2.9Mbp | 102.0 | 452.22 | 25.20 | 2383 | 68 | 90.9% |
| 16SBCL1586_scaffold_closed | 1774.4Kbp | 458.5Kbp | 0.0K | 2.0K | 1774.4Kbp | 2.9Mbp | 97.0 | 449.17 | 25.89 | 2381 | 67 | 90.8% |
| 16SBCL1587_scaffold_closed | 2336.2Kbp | 2336.2Kbp | 0.0K | 1.0K | 2336.2Kbp | 2.9Mbp | 99.0 | 452.63 | 25.88 | 2372 | 69 | 90.8% |
| 16SBCL1588_scaffold_closed | 2862.4Kbp | 2862.4Kbp | 0.0K | 1.0K | 2862.4Kbp | 2.9Mbp | 118.0 | 451.09 | 25.36 | 2380 | 83 | 91.1% |
| 16SBCL1589_scaffold_closed | 3282.4Kbp | 3282.4Kbp | 0.0K | 1.0K | 3282.4Kbp | 3.4Mbp | 65.0 | 908.09 | 43.52 | 2643 | 47 | 89.5% |
| 16SBCL1590_scaffold_closed | 3164.4Kbp | 3164.4Kbp | 0.0K | 1.0K | 3164.4Kbp | 3.2Mbp | 88.0 | 1230.64 | 61.70 | 2592 | 55 | 87.1% |
| 16SBCL1591_scaffold_closed | 3232.0Kbp | 3232.0Kbp | 0.0K | 1.0K | 3232.0Kbp | 3.4Mbp | 48.0 | 459.47 | 24.81 | 2634 | 40 | 90.5% |
| 16SBCL1592_scaffold_closed | 2994.1Kbp | 2994.1Kbp | 0.0K | 1.0K | 2994.1Kbp | 3.0Mbp | 89.0 | 3088.33 | 136.85 | 2159 | 48 | 72.2% |
| 16SBCL525_scaffold_closed | 3264.1Kbp | 3264.1Kbp | 0.0K | 1.0K | 3264.1Kbp | 3.4Mbp | 76.0 | 1203.61 | 57.68 | 2664 | 53 | 90.1% |
| 16SBCL528_scaffold_closed | 2103.7Kbp | 450.6Kbp | 0.0K | 2.0K | 2103.7Kbp | 2.9Mbp | 98.0 | 384.90 | 22.46 | 2441 | 73 | 92.8% |
| 16SBCL529_scaffold_closed | 1471.8Kbp | 1175.5Kbp | 0.0K | 2.0K | 1471.8Kbp | 2.9Mbp | 92.0 | 384.92 | 21.91 | 2438 | 53 | 92.6% |
| 16SBCL530_scaffold_closed | 2419.5Kbp | 2419.5Kbp | 0.0K | 1.0K | 2419.5Kbp | 2.9Mbp | 98.0 | 381.83 | 24.09 | 2439 | 66 | 92.8% |
| 16SBCL531_scaffold_closed | 1657.9Kbp | 285.6Kbp | 0.0K | 3.0K | 1657.9Kbp | 2.9Mbp | 86.0 | 378.71 | 22.74 | 2442 | 59 | 92.7% |
| 16SBCL532_scaffold_closed | 2259.8Kbp | 2259.8Kbp | 0.0K | 1.0K | 2259.8Kbp | 2.9Mbp | 93.0 | 381.92 | 22.64 | 2439 | 71 | 92.9% |
| 16SBCL537_scaffold_closed | 3176.5Kbp | 3176.5Kbp | 0.0K | 1.0K | 3176.5Kbp | 3.2Mbp | 63.0 | 1156.58 | 54.94 | 2667 | 42 | 89.8% |
| 16SBCL538_scaffold_closed | 3038.0Kbp | 3038.0Kbp | 0.0K | 1.0K | 3038.0Kbp | 3.1Mbp | 90.0 | 3063.10 | 136.11 | 2166 | 43 | 71.4% |
| 16SBCL563_scaffold_closed | 2731.0Kbp | 2731.0Kbp | 0.0K | 1.0K | 2731.0Kbp | 3.0Mbp | 72.0 | 167.40 | 11.24 | 2498 | 64 | 94.9% |
| 16SBCL564_scaffold_closed | 2448.6Kbp | 2448.6Kbp | 0.0K | 1.0K | 2448.6Kbp | 3.0Mbp | 55.0 | 166.96 | 11.28 | 2502 | 52 | 94.9% |
| 16SBCL565_scaffold_closed | 2484.6Kbp | 2484.6Kbp | 0.0K | 1.0K | 2484.6Kbp | 2.9Mbp | 65.0 | 165.04 | 11.43 | 2503 | 45 | 94.9% |
| 16SBCL566_scaffold_closed | 2335.3Kbp | 2335.3Kbp | 0.0K | 1.0K | 2335.3Kbp | 3.0Mbp | 68.0 | 171.21 | 13.41 | 2502 | 52 | 94.9% |
| 16SBCL567_scaffold_closed | 2576.2Kbp | 2576.2Kbp | 0.0K | 1.0K | 2576.2Kbp | 3.0Mbp | 65.0 | 170.01 | 11.82 | 2501 | 58 | 94.9% |
| 16SBCL570_scaffold_closed | 3280.9Kbp | 3280.9Kbp | 0.0K | 1.0K | 3280.9Kbp | 3.4Mbp | 43.0 | 866.70 | 39.58 | 2721 | 33 | 91.6% |
| 16SBCL571_scaffold_closed | 4265.8Kbp | 782.3Kbp | 0.0K | 2.0K | 4265.8Kbp | 5.9Mbp | 991.0 | 1657.65 | 79.01 | 1578 | 1022 | 82.7% |
| 16SBCL572_scaffold_closed | 5036.6Kbp | 5036.6Kbp | 0.0K | 1.0K | 5036.6Kbp | 5.6Mbp | 1043.0 | 1675.90 | 83.36 | 1635 | 1000 | 83.7% |
| 16SBCL575_scaffold_closed | 3293.7Kbp | 3293.7Kbp | 0.0K | 1.0K | 3293.7Kbp | 3.3Mbp | 90.0 | 1413.13 | 70.93 | 2553 | 49 | 85.6% |
| 16SBCL576_scaffold_closed | 3203.5Kbp | 3203.5Kbp | 0.0K | 1.0K | 3203.5Kbp | 4.2Mbp | 104.0 | 1411.36 | 63.10 | 2486 | 49 | 84.4% |
| 16SBCL577_scaffold_closed | 2603.9Kbp | 2603.9Kbp | 0.0K | 1.0K | 2603.9Kbp | 3.0Mbp | 78.0 | 166.59 | 12.88 | 2494 | 54 | 94.8% |
| 16SBCL578_scaffold_closed | 3335.5Kbp | 3335.5Kbp | 0.0K | 1.0K | 3335.5Kbp | 3.4Mbp | 74.0 | 1312.24 | 61.15 | 2657 | 39 | 89.8% |
| 16SBCL579_scaffold_closed | 3377.5Kbp | 3377.5Kbp | 0.0K | 1.0K | 3377.5Kbp | 3.5Mbp | 81.0 | 1174.27 | 54.11 | 2671 | 53 | 90.0% |
| 16SBCL580_scaffold_closed | 2438.9Kbp | 2438.9Kbp | 0.0K | 1.0K | 2438.9Kbp | 2.9Mbp | 105.0 | 453.80 | 25.41 | 2386 | 60 | 90.9% |
| 16SBCL581_scaffold_closed | 2167.5Kbp | 635.4Kbp | 0.0K | 2.0K | 2167.5Kbp | 2.9Mbp | 107.0 | 455.73 | 26.05 | 2381 | 67 | 90.9% |
| 16SBCL582_scaffold_closed | 1803.8Kbp | 594.5Kbp | 0.0K | 2.0K | 1803.8Kbp | 2.9Mbp | 106.0 | 456.67 | 26.73 | 2385 | 69 | 91.0% |
| 16SBCL583_scaffold_closed | 2885.0Kbp | 2885.0Kbp | 0.0K | 1.0K | 2885.0Kbp | 2.9Mbp | 109.0 | 453.85 | 25.82 | 2385 | 64 | 91.0% |
| 16SBCL584_scaffold_closed | 2360.5Kbp | 369.5Kbp | 0.0K | 2.0K | 2360.5Kbp | 3.3Mbp | 187.0 | 207.17 | 15.28 | 2404 | 158 | 94.9% |
| 16SBCL585_scaffold_closed | 2901.3Kbp | 2901.3Kbp | 0.0K | 1.0K | 2901.3Kbp | 2.9Mbp | 107.0 | 446.13 | 24.83 | 2372 | 70 | 91.0% |
| 16SBCL586_scaffold_closed | 1940.2Kbp | 465.9Kbp | 0.0K | 2.0K | 1940.2Kbp | 2.9Mbp | 100.0 | 455.19 | 25.92 | 2386 | 75 | 91.1% |
| 16SBCL587_scaffold_closed | 2676.9Kbp | 2676.9Kbp | 0.0K | 1.0K | 2676.9Kbp | 2.9Mbp | 116.0 | 455.77 | 26.71 | 2383 | 62 | 91.0% |
| 16SBCL588_scaffold_closed | 2444.1Kbp | 2444.1Kbp | 0.0K | 1.0K | 2444.1Kbp | 2.9Mbp | 93.0 | 449.59 | 25.75 | 2387 | 74 | 91.0% |
| 16SBCL589_scaffold_closed | 2813.8Kbp | 2813.8Kbp | 0.0K | 1.0K | 2813.8Kbp | 2.9Mbp | 108.0 | 454.15 | 25.72 | 2387 | 58 | 91.0% |
| 16SBCL590A_scaffold_closed | 1127.4Kbp | 1127.4Kbp | 0.0K | 2.0K | 1305.2Kbp | 2.9Mbp | 95.0 | 455.16 | 26.15 | 2382 | 79 | 91.1% |
| 16SBCL590B_scaffold_closed | 2376.4Kbp | 2376.4Kbp | 0.0K | 1.0K | 2376.4Kbp | 2.9Mbp | 98.0 | 448.34 | 25.64 | 2378 | 74 | 91.0% |
| 16SBCL591_scaffold_closed | 2794.4Kbp | 2794.4Kbp | 0.0K | 1.0K | 2794.4Kbp | 2.9Mbp | 107.0 | 456.81 | 25.98 | 2379 | 56 | 90.9% |
| 16SBCL592A_scaffold_closed | 2859.7Kbp | 2859.7Kbp | 0.0K | 1.0K | 2859.7Kbp | 2.9Mbp | 100.0 | 446.98 | 24.48 | 2377 | 70 | 90.9% |
| 16SBCL592B_scaffold_closed | 2898.5Kbp | 2898.5Kbp | 0.0K | 1.0K | 2898.5Kbp | 2.9Mbp | 99.0 | 452.35 | 25.05 | 2374 | 70 | 90.9% |
| 16SBCL593A_scaffold_closed | 2916.3Kbp | 2916.3Kbp | 0.0K | 1.0K | 2916.3Kbp | 2.9Mbp | 95.0 | 453.62 | 25.82 | 2384 | 58 | 90.9% |
| 16SBCL593B_scaffold_closed | 2648.9Kbp | 2648.9Kbp | 0.0K | 1.0K | 2648.9Kbp | 2.9Mbp | 104.0 | 457.42 | 25.88 | 2380 | 76 | 90.9% |
| 16SBCL595_scaffold_closed | 3220.9Kbp | 3220.9Kbp | 0.0K | 1.0K | 3220.9Kbp | 3.3Mbp | 64.0 | 1138.71 | 54.88 | 2661 | 39 | 90.0% |
| 16SBCL596A_scaffold_closed | 3304.1Kbp | 3304.1Kbp | 0.0K | 1.0K | 3304.1Kbp | 3.4Mbp | 67.0 | 1087.55 | 55.26 | 2699 | 43 | 91.1% |
| 16SBCL596B_scaffold_closed | 3203.9Kbp | 3203.9Kbp | 0.0K | 1.0K | 3203.9Kbp | 3.4Mbp | 65.0 | 1105.96 | 55.27 | 2694 | 42 | 91.1% |
| 16SBCL599_scaffold_closed | 1153.6Kbp | 1153.6Kbp | 0.0K | 2.0K | 1193.9Kbp | 2.9Mbp | 109.0 | 456.03 | 25.98 | 2376 | 77 | 91.1% |
| 16SBCL600_scaffold_closed | 3261.7Kbp | 3261.7Kbp | 0.0K | 1.0K | 3261.7Kbp | 3.3Mbp | 40.0 | 654.97 | 33.14 | 2732 | 33 | 92.3% |
| 16SBCL601_scaffold_closed | 3141.4Kbp | 3141.4Kbp | 0.0K | 1.0K | 3141.4Kbp | 3.2Mbp | 54.0 | 839.02 | 37.27 | 2612 | 31 | 88.3% |
| 16SBCL602_scaffold_closed | 3140.0Kbp | 3140.0Kbp | 0.0K | 1.0K | 3140.0Kbp | 3.2Mbp | 55.0 | 838.28 | 37.15 | 2603 | 26 | 88.3% |
| 16SBCL603_scaffold_closed | 3211.7Kbp | 3211.7Kbp | 0.0K | 1.0K | 3211.7Kbp | 3.3Mbp | 34.0 | 659.77 | 32.88 | 2729 | 36 | 92.3% |
| 16SBCL604_scaffold_closed | 3256.2Kbp | 3256.2Kbp | 0.0K | 1.0K | 3256.2Kbp | 3.3Mbp | 40.0 | 644.56 | 31.88 | 2724 | 37 | 92.3% |
| 16SBCL605_scaffold_closed | 2923.9Kbp | 2923.9Kbp | 0.0K | 1.0K | 2923.9Kbp | 2.9Mbp | 104.0 | 437.52 | 26.10 | 2410 | 67 | 92.0% |
| 16SBCL606_scaffold_closed | 2784.2Kbp | 2784.2Kbp | 0.0K | 1.0K | 2784.2Kbp | 2.9Mbp | 100.0 | 450.83 | 26.74 | 2409 | 65 | 91.8% |
| 16SBCL607_scaffold_closed | 2288.2Kbp | 2288.2Kbp | 0.0K | 1.0K | 2288.2Kbp | 2.9Mbp | 98.0 | 446.76 | 26.09 | 2417 | 65 | 91.9% |
| 16SBCL608_scaffold_closed | 2261.0Kbp | 2261.0Kbp | 0.0K | 1.0K | 2261.0Kbp | 2.9Mbp | 91.0 | 450.31 | 26.80 | 2387 | 65 | 90.8% |
| 16SBCL609_scaffold_closed | 2912.9Kbp | 2912.9Kbp | 0.0K | 1.0K | 2912.9Kbp | 2.9Mbp | 85.0 | 474.02 | 27.89 | 2400 | 70 | 91.3% |
| 16SBCL610_scaffold_closed | 3180.6Kbp | 3180.6Kbp | 0.0K | 1.0K | 3180.6Kbp | 3.3Mbp | 53.0 | 745.11 | 35.97 | 2709 | 27 | 90.8% |
| 16SBCL611_scaffold_closed | 3139.0Kbp | 3139.0Kbp | 0.0K | 1.0K | 3139.0Kbp | 3.3Mbp | 49.0 | 747.36 | 36.88 | 2704 | 30 | 90.9% |
| 16SBCL615_scaffold_closed | 2633.6Kbp | 2633.6Kbp | 0.0K | 1.0K | 2633.6Kbp | 3.0Mbp | 129.0 | 1007.36 | 53.94 | 2299 | 61 | 88.2% |
| 16SBCL616_scaffold_closed | 2784.2Kbp | 2784.2Kbp | 0.0K | 1.0K | 2784.2Kbp | 3.0Mbp | 124.0 | 1009.39 | 52.36 | 2302 | 67 | 88.3% |
| 16SBCL617_scaffold_closed | 2860.0Kbp | 2860.0Kbp | 0.0K | 1.0K | 2860.0Kbp | 3.0Mbp | 122.0 | 1011.08 | 53.16 | 2304 | 62 | 88.3% |
| 16SBCL618_scaffold_closed | 2870.2Kbp | 2870.2Kbp | 0.0K | 1.0K | 2870.2Kbp | 3.0Mbp | 167.0 | 1010.29 | 52.31 | 2298 | 88 | 88.8% |
| 16SBCL620_scaffold_closed | 2883.0Kbp | 2883.0Kbp | 0.0K | 1.0K | 2883.0Kbp | 3.3Mbp | 60.0 | 1125.35 | 51.53 | 2683 | 37 | 90.9% |
| 16SBCL621_scaffold_closed | 2649.2Kbp | 2649.2Kbp | 0.0K | 1.0K | 2649.2Kbp | 3.1Mbp | 96.0 | 1419.78 | 69.07 | 2524 | 58 | 85.9% |
| 16SBCL624_scaffold_closed | 2827.1Kbp | 2827.1Kbp | 0.0K | 1.0K | 2827.1Kbp | 2.9Mbp | 160.0 | 1008.18 | 57.35 | 2246 | 83 | 87.0% |
| 16SBCL625_scaffold_closed | 2905.4Kbp | 2905.4Kbp | 0.0K | 1.0K | 2905.4Kbp | 2.9Mbp | 130.0 | 1008.67 | 54.97 | 2292 | 55 | 87.8% |
| 16SBCL627_scaffold_closed | 2905.6Kbp | 2905.6Kbp | 0.0K | 1.0K | 2905.6Kbp | 2.9Mbp | 127.0 | 1042.64 | 55.94 | 2286 | 60 | 87.7% |
| 16SBCL628_scaffold_closed | 2907.5Kbp | 2907.5Kbp | 0.0K | 1.0K | 2907.5Kbp | 2.9Mbp | 122.0 | 1009.26 | 55.29 | 2286 | 58 | 87.8% |
| 16SBCL629_scaffold_closed | 3225.9Kbp | 3225.9Kbp | 0.0K | 1.0K | 3225.9Kbp | 3.3Mbp | 57.0 | 1166.72 | 51.37 | 2676 | 41 | 90.8% |
| 16SBCL631_scaffold_closed | 2796.5Kbp | 2796.5Kbp | 0.0K | 1.0K | 2796.5Kbp | 3.4Mbp | 53.0 | 833.23 | 40.41 | 2710 | 36 | 91.6% |
| 16SBCL632_scaffold_closed | 3206.7Kbp | 3206.7Kbp | 0.0K | 1.0K | 3206.7Kbp | 3.3Mbp | 55.0 | 1196.19 | 53.54 | 2683 | 38 | 90.6% |
| 16SBCL648_scaffold_closed | 3324.9Kbp | 3324.9Kbp | 0.0K | 1.0K | 3324.9Kbp | 3.5Mbp | 88.0 | 1238.25 | 59.51 | 2602 | 62 | 87.8% |
| 16SBCL816_scaffold_closed | 3190.6Kbp | 3190.6Kbp | 0.0K | 1.0K | 3190.6Kbp | 3.5Mbp | 105.0 | 1419.98 | 70.23 | 2486 | 60 | 84.5% |
| 16SBCL939_scaffold_closed | 2618.0Kbp | 2618.0Kbp | 0.0K | 1.0K | 2618.0Kbp | 2.9Mbp | 100.0 | 383.75 | 23.23 | 2442 | 48 | 92.7% |
| 16SBCL940_scaffold_closed | 2635.1Kbp | 2635.1Kbp | 0.0K | 1.0K | 2635.1Kbp | 2.9Mbp | 91.0 | 382.62 | 21.95 | 2442 | 48 | 92.6% |
| 16SBCL941_scaffold_closed | 2287.2Kbp | 2287.2Kbp | 0.0K | 1.0K | 2287.2Kbp | 2.9Mbp | 105.0 | 373.55 | 22.03 | 2444 | 73 | 92.9% |
| 16SBCL942_scaffold_closed | 2625.0Kbp | 2625.0Kbp | 0.0K | 1.0K | 2625.0Kbp | 2.9Mbp | 101.0 | 383.93 | 22.54 | 2434 | 70 | 92.8% |
| 16SBCL943_scaffold_closed | 1994.5Kbp | 383.3Kbp | 0.0K | 2.0K | 1994.5Kbp | 2.9Mbp | 84.0 | 385.78 | 22.93 | 2446 | 47 | 92.7% |
| 16SBCL944_scaffold_closed | 2486.0Kbp | 2486.0Kbp | 0.0K | 1.0K | 2486.0Kbp | 2.9Mbp | 82.0 | 383.01 | 23.11 | 2441 | 52 | 92.6% |
| 16SBCL945_scaffold_closed | 2795.3Kbp | 2795.3Kbp | 0.0K | 1.0K | 2795.3Kbp | 2.9Mbp | 91.0 | 377.77 | 21.83 | 2448 | 44 | 92.7% |
| 17SBCL1132_scaffold_closed | 3263.8Kbp | 3263.8Kbp | 0.0K | 1.0K | 3263.8Kbp | 3.3Mbp | 44.0 | 811.65 | 39.38 | 2715 | 37 | 91.9% |
| 17SBCL1133_scaffold_closed | 3240.3Kbp | 3240.3Kbp | 0.0K | 1.0K | 3240.3Kbp | 3.7Mbp | 64.0 | 959.67 | 47.49 | 2662 | 71 | 90.6% |
| 17SBCL1134_scaffold_closed | 3161.9Kbp | 3161.9Kbp | 0.0K | 1.0K | 3161.9Kbp | 3.3Mbp | 97.0 | 1183.24 | 60.80 | 2566 | 50 | 85.7% |
| 17SBCL1136_scaffold_closed | 2377.3Kbp | 2377.3Kbp | 0.0K | 1.0K | 2377.3Kbp | 2.9Mbp | 69.0 | 65.14 | 6.11 | 2538 | 43 | 96.0% |
| 17SBCL1137_scaffold_closed | 1662.1Kbp | 188.2Kbp | 0.0K | 4.0K | 1662.1Kbp | 3.0Mbp | 128.0 | 386.38 | 24.29 | 2368 | 118 | 91.9% |
| 17SBCL19_scaffold_closed | 2880.0Kbp | 2880.0Kbp | 0.0K | 1.0K | 2880.0Kbp | 2.9Mbp | 108.0 | 447.46 | 23.15 | 2371 | 56 | 90.3% |
| 17SBCL20_scaffold_closed | 2886.4Kbp | 2886.4Kbp | 0.0K | 1.0K | 2886.4Kbp | 2.9Mbp | 115.0 | 446.73 | 23.89 | 2368 | 71 | 90.4% |
| 17SBCL21_scaffold_closed | 2810.3Kbp | 2810.3Kbp | 0.0K | 1.0K | 2810.3Kbp | 2.9Mbp | 111.0 | 447.15 | 24.22 | 2364 | 73 | 90.2% |
| 17SBCL22_scaffold_closed | 2885.0Kbp | 2885.0Kbp | 0.0K | 1.0K | 2885.0Kbp | 2.9Mbp | 107.0 | 451.07 | 24.36 | 2369 | 73 | 90.4% |
| 17SBCL23_scaffold_closed | 2730.5Kbp | 2730.5Kbp | 0.0K | 1.0K | 2730.5Kbp | 2.9Mbp | 92.0 | 447.37 | 23.88 | 2365 | 73 | 90.3% |
| 17SBCL335_scaffold_closed | 3322.5Kbp | 3322.5Kbp | 0.0K | 1.0K | 3322.5Kbp | 3.3Mbp | 62.0 | 1152.71 | 52.70 | 2697 | 33 | 90.6% |
| 17SBCL336_scaffold_closed | 3322.1Kbp | 3322.1Kbp | 0.0K | 1.0K | 3322.1Kbp | 3.3Mbp | 60.0 | 1174.32 | 52.77 | 2697 | 34 | 90.5% |
| 17SBCL337_scaffold_closed | 3321.8Kbp | 3321.8Kbp | 0.0K | 1.0K | 3321.8Kbp | 3.3Mbp | 64.0 | 1176.21 | 53.35 | 2695 | 34 | 90.5% |
| 17SBCL338_scaffold_closed | 3317.4Kbp | 3317.4Kbp | 0.0K | 1.0K | 3317.4Kbp | 3.3Mbp | 58.0 | 1173.72 | 53.40 | 2691 | 35 | 90.5% |
| 17SBCL339_scaffold_closed | 3228.2Kbp | 3228.2Kbp | 0.0K | 1.0K | 3228.2Kbp | 3.3Mbp | 58.0 | 1173.36 | 53.10 | 2693 | 36 | 90.6% |
| 17SBCL67_scaffold_closed | 3188.5Kbp | 3188.5Kbp | 0.0K | 1.0K | 3188.5Kbp | 3.3Mbp | 53.0 | 818.78 | 39.82 | 2667 | 49 | 90.0% |
| 17SBCL767_scaffold_closed | 3277.4Kbp | 3277.4Kbp | 0.0K | 1.0K | 3277.4Kbp | 3.5Mbp | 64.0 | 937.41 | 47.93 | 2598 | 51 | 87.9% |
| 17SBCL768_scaffold_closed | 3203.2Kbp | 3203.2Kbp | 0.0K | 1.0K | 3203.2Kbp | 3.5Mbp | 101.0 | 1141.80 | 57.06 | 2590 | 49 | 87.0% |
| 17SBCL79_scaffold_closed | 3229.4Kbp | 3229.4Kbp | 0.0K | 1.0K | 3229.4Kbp | 3.4Mbp | 52.0 | 717.02 | 34.52 | 2737 | 30 | 92.1% |
| 17SBCL80_scaffold_closed | 3141.8Kbp | 3141.8Kbp | 0.0K | 1.0K | 3141.8Kbp | 3.4Mbp | 52.0 | 712.02 | 34.09 | 2739 | 34 | 92.0% |
| 17SBCL81_scaffold_closed | 3454.3Kbp | 3454.3Kbp | 0.0K | 1.0K | 3454.3Kbp | 3.6Mbp | 56.0 | 722.03 | 34.06 | 2735 | 31 | 92.0% |
| 17SBCL82_scaffold_closed | 3227.9Kbp | 3227.9Kbp | 0.0K | 1.0K | 3227.9Kbp | 3.4Mbp | 52.0 | 717.81 | 34.24 | 2733 | 34 | 92.0% |
| 17SBCL83_scaffold_closed | 2766.4Kbp | 2766.4Kbp | 0.0K | 1.0K | 2766.4Kbp | 3.5Mbp | 56.0 | 720.13 | 34.23 | 2738 | 33 | 92.1% |
| 17SBCL85_scaffold_closed | 3230.8Kbp | 3230.8Kbp | 0.0K | 1.0K | 3230.8Kbp | 3.4Mbp | 52.0 | 708.10 | 34.25 | 2742 | 33 | 92.1% |
| 17SBCL86_scaffold_closed | 3228.8Kbp | 3228.8Kbp | 0.0K | 1.0K | 3228.8Kbp | 3.4Mbp | 53.0 | 714.31 | 34.19 | 2739 | 32 | 92.1% |
| 17SBCL87_scaffold_closed | 3228.7Kbp | 3228.7Kbp | 0.0K | 1.0K | 3228.7Kbp | 3.4Mbp | 52.0 | 720.27 | 34.33 | 2736 | 34 | 92.0% |
| 17SBCL88_scaffold_closed | 3228.0Kbp | 3228.0Kbp | 0.0K | 1.0K | 3228.0Kbp | 3.4Mbp | 53.0 | 710.66 | 33.89 | 2740 | 31 | 92.0% |
| 17SBSCL512_scaffold_closed | 2322.3Kbp | 2322.3Kbp | 0.0K | 1.0K | 2322.3Kbp | 2.9Mbp | 63.0 | 175.14 | 12.85 | 2508 | 45 | 95.0% |
| 17SBSCL513_scaffold_closed | 2482.5Kbp | 2482.5Kbp | 0.0K | 1.0K | 2482.5Kbp | 2.9Mbp | 69.0 | 172.07 | 13.25 | 2500 | 56 | 95.1% |
| 17SBSCL738_scaffold_closed | 2742.6Kbp | 2742.6Kbp | 0.0K | 1.0K | 2742.6Kbp | 2.9Mbp | 150.0 | 986.32 | 52.60 | 2296 | 60 | 88.4% |
| 17SBSCL739_scaffold_closed | 2654.7Kbp | 2654.7Kbp | 0.0K | 1.0K | 2654.7Kbp | 2.9Mbp | 141.0 | 989.23 | 52.89 | 2298 | 65 | 88.4% |
| 18SBCL173_scaffold_closed | 2735.2Kbp | 2735.2Kbp | 0.0K | 1.0K | 2735.2Kbp | 2.9Mbp | 99.0 | 433.74 | 24.39 | 2456 | 67 | 93.2% |
Number of Contigs
This plot shows the number of contigs found for each assembly, broken down by length.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Bowtie 2
Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences.
This plot shows the number of reads aligning to the reference in different ways.
There are 3 possible types of alignment: SE Mapped uniquely: Read has only one occurence in the reference genome. SE Multimapped: Read has multiple occurence. * SE No aligned: Read has no occurence.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Trimmomatic
Trimmomatic is a flexible read trimming tool for Illumina NGS data.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
FastQC
FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.
Sequence Quality Histograms
The mean quality value across each base position in the read. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Per Sequence Quality Scores
The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Per Base Sequence Content
The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.
Click a sample row to see a line plot for that dataset.
Rollover for sample name
Position: -
%T: -
%C: -
%A: -
%G: -
Per Sequence GC Content
The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Per Base N Content
The percentage of base calls at each position for which an N was called. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Sequence Length Distribution
All samples have sequences of a single length (151bp).
Sequence Duplication Levels
The relative level of duplication found for every sequence. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Overrepresented sequences
The total amount of overrepresented sequences found in each library. See the FastQC help for further information.
298 samples had less than 1% of reads made up of overrepresented sequences
Adapter Content
The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. See the FastQC help. Only samples with ≥ 0.1% adapter contamination are shown.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
